6PKW

Cryo-EM structure of the zebrafish TRPM2 channel in the apo conformation, processed with C2 symmetry (pseudo C4 symmetry)

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: mpstruc

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	F_UNCLASSIFIED	e6pkwA2	A: alpha superhelices	X: Repetitive alpha hairpins	H: Ankyrin repeat (From Topology)	T: Ankyrin repeat	F: F_UNCLASSIFIED	ECOD (1.6)
A	Ion_trans	e6pkwA3	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: Ion_trans	ECOD (1.6)
A	F_UNCLASSIFIED	e6pkwA4	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: F_UNCLASSIFIED	ECOD (1.6)
A	F_UNCLASSIFIED	e6pkwA1	A: a/b three-layered sandwiches	X: MCP/YpsA-related (From Topology)	H: MCP/YpsA-related (From Topology)	T: MCP/YpsA-related	F: F_UNCLASSIFIED	ECOD (1.6)
B [auth C]	F_UNCLASSIFIED	e6pkwC2	A: alpha superhelices	X: Repetitive alpha hairpins	H: Ankyrin repeat (From Topology)	T: Ankyrin repeat	F: F_UNCLASSIFIED	ECOD (1.6)
B [auth C]	Ion_trans	e6pkwC3	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: Ion_trans	ECOD (1.6)
B [auth C]	F_UNCLASSIFIED	e6pkwC4	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: F_UNCLASSIFIED	ECOD (1.6)
B [auth C]	F_UNCLASSIFIED	e6pkwC1	A: a/b three-layered sandwiches	X: MCP/YpsA-related (From Topology)	H: MCP/YpsA-related (From Topology)	T: MCP/YpsA-related	F: F_UNCLASSIFIED	ECOD (1.6)
C [auth B]	F_UNCLASSIFIED	e6pkwB1	A: alpha superhelices	X: Repetitive alpha hairpins	H: Ankyrin repeat (From Topology)	T: Ankyrin repeat	F: F_UNCLASSIFIED	ECOD (1.6)
C [auth B]	Ion_trans	e6pkwB2	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: Ion_trans	ECOD (1.6)
C [auth B]	F_UNCLASSIFIED	e6pkwB3	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: F_UNCLASSIFIED	ECOD (1.6)
C [auth B]	F_UNCLASSIFIED	e6pkwB4	A: a/b three-layered sandwiches	X: MCP/YpsA-related (From Topology)	H: MCP/YpsA-related (From Topology)	T: MCP/YpsA-related	F: F_UNCLASSIFIED	ECOD (1.6)
D	F_UNCLASSIFIED	e6pkwD1	A: alpha superhelices	X: Repetitive alpha hairpins	H: Ankyrin repeat (From Topology)	T: Ankyrin repeat	F: F_UNCLASSIFIED	ECOD (1.6)
D	Ion_trans	e6pkwD2	A: alpha complex topology	X: Voltage-gated ion channels (From Topology)	H: Voltage-gated ion channels (From Topology)	T: Voltage-gated ion channels	F: Ion_trans	ECOD (1.6)
D	F_UNCLASSIFIED	e6pkwD3	A: a+b two layers	X: beta-Grasp	H: Nudix (From Topology)	T: Nudix	F: F_UNCLASSIFIED	ECOD (1.6)
D	F_UNCLASSIFIED	e6pkwD4	A: a/b three-layered sandwiches	X: MCP/YpsA-related (From Topology)	H: MCP/YpsA-related (From Topology)	T: MCP/YpsA-related	F: F_UNCLASSIFIED	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth C], C [auth B], D	PF18139	SLOG in TRPM (LSDAT_euk)	SLOG in TRPM	-	Family
A, B [auth C], C [auth B], D	PF00520	Ion transport protein (Ion_trans)	Ion transport protein	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth C], C [auth B], D	Transient receptor potential cation channel subfamily M member 2	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding nucleoside phosphate binding organic cyclic compound binding ADP-D-ribose binding anion binding heterocyclic compound binding carbohydrate derivative binding monoatomic cation transmembrane transporter activity gated channel activity cation binding ion binding binding calcium ion binding metal ion binding small molecule binding nucleoside phosphate binding organic cyclic compound binding ADP-D-ribose binding anion binding heterocyclic compound binding carbohydrate derivative binding monoatomic cation transmembrane transporter activity gated channel activity monoatomic ion channel activity ligand-gated channel activity ligand-gated monoatomic ion channel activity monoatomic cation channel activity passive transmembrane transporter activity channel activity monoatomic ion transmembrane transporter activity transporter activity ligand-gated monoatomic cation channel activity transmembrane transporter activity calcium channel activity calcium ion transmembrane transporter activity inorganic molecular entity transmembrane transporter activity ligand-gated calcium channel activity inorganic cation transmembrane transporter activity metal ion transmembrane transporter activity mono-ADP-D-ribose binding	transport monoatomic ion transmembrane transport inorganic ion transmembrane transport establishment of localization calcium ion transport metal ion transport inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization monoatomic ion transport cellular process monoatomic cation transport calcium ion transmembrane transport transport monoatomic ion transmembrane transport inorganic ion transmembrane transport establishment of localization calcium ion transport metal ion transport inorganic cation transmembrane transport transmembrane transport monoatomic cation transmembrane transport localization monoatomic ion transport cellular process monoatomic cation transport calcium ion transmembrane transport regulation of localization cellular localization regulation of cellular process inorganic ion homeostasis intracellular calcium ion homeostasis homeostatic process negative regulation of biological process calcium ion homeostasis negative regulation of sequestering of calcium ion maintenance of location in cell intracellular monoatomic cation homeostasis monoatomic ion homeostasis negative regulation of cellular process intracellular chemical homeostasis monoatomic cation homeostasis regulation of sequestering of calcium ion intracellular monoatomic ion homeostasis regulation of biological process calcium ion transmembrane import into cytosol sequestering of calcium ion biological regulation maintenance of location release of sequestered calcium ion into cytosol cellular homeostasis chemical homeostasis protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis	cell periphery plasma membrane membrane cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth C], C [auth B], D	IPR005821	Ion transport domain	Domain
A, B [auth C], C [auth B], D	IPR041491	TRPM, SLOG domain	Domain
A, B [auth C], C [auth B], D	IPR015797	NUDIX hydrolase-like domain superfamily	Homologous Superfamily
A, B [auth C], C [auth B], D	IPR050927	Transient receptor potential cation channel M	Family

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B [auth C], C [auth B], D	OPM	Transmembrane	Alpha-helical polytopic	Ion channel (VIC) superfamily	Transient receptor potential channels

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B [auth C], C [auth B], D	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: mpstruc mpstruc Database Homepage

Chains	Resource Link	Group	Subgroup	Protein
A, B [auth C], C [auth B], D	mpstruc	TRANSMEMBRANE PROTEINS: ALPHA-HELICAL	Channels: Transient Receptor Potential (TRP)	TRPM2 ion channel in apo state processed with C4 symmetry

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.